API for sandraTL/PathQuant
Annotation of gene-metabolite pairs using topology of KEGG metabolic pathway maps

Global functions
annotateAssociationData Source code
barplotFunctionGeneToAllMetabo Source code
barplot_adjustMaximalDistance Source code
changeDFassoToRigthDistances Source code
concatDfColInfoFromDuplicate Source code
correctKeggIdString Source code
correctReactionString Source code
create.data.restul.ob Source code
createGraphFromPathway Source code
downloadFileByUrl Source code
exportDFtoTxt Man page Source code
finalReactionEdgeDF Source code
fitColors Source code
gene.distribution Source code
geneClassificationForMappingMetabolicGenes Source code
get.complete.list.pathways Source code
get.gene.product Source code
get.srd Source code
get.url.list.pathway.by.organism Source code
getAssociatedMetaboByGene Source code
getAssociationForHeatmap Source code
getAssociationsDF Source code
getBriteListByKEGGId Source code
getBriteListWithNa Source code
getCommonNames Source code
getCompoundNodeKgmlId Source code
getDataFrameOfDuplicateCompounds Source code
getDistanceAll Source code
getDistanceAssoAllMaps Source code
getDistanceAssoPerm Source code
getDistanceDistribution Source code
getEcListWithNa Source code
getFrequenceAssociationsDF Source code
getGeneBriteList Source code
getHeadTailKgmlIdOfEdge Source code
getHumanGeneByMap Source code
getHumanGeneByMapUrl Source code
getKEGGInfoUrl Source code
getKGMLRootNode Source code
getListEdgeFromGeneKGML Source code
getListNodeFromKGML Source code
getListOfUniqueHSAGeneId Source code
getListOfUniqueMetabolite Source code
getListOrthologGeneFromKGML Source code
getListReactionFromKGML Source code
getListUniqueMetaboliteInReactions Source code
getMaxValIgnoreInfVal Source code
getMetaboliteByMap Source code
getMetaboliteByMapUrl Source code
getNames Source code
getPathCommonNames Source code
getPathwayKGML Source code Source code
getSuperClassByKEggId Source code
getUnmappedAsso Source code
grep2DF Source code
groupedBarPlot Source code Source code
heatmap Source code
histogramFunction Source code
importTXTtoDF Source code
importXLSXtoDF Source code
isFileInDirectory Source code
ls.objects Source code
lsos Source code
merge2DFWithSmallestValue Source code
mergeRowsWithSmallestValueByKEGGId Source code
mergeVectorsLowerValues Source code
numberOfMetabolites Source code
numberOfReactions Source code
permutationTest Man page Source code
removeDuplicatedColumnDF Source code
removeNotInGraph Source code
removeRowsDistanceAll Source code
removeRowsDistanceAsso Source code
srd.distribution Source code
test_distributionGene Source code
test_getDistanceAll Source code
test_getDistanceAsso Source code
test_getDistanceAssoPerm Source code
test_heatmap Source code
test_permutationTest Source code
toCompoundAdressfile Source code
toStringAdressfile Source code
toStringDestfile Source code
toStringPathFile Source code
unlistEdgeReactionCol Source code
sandraTL/PathQuant documentation built on June 6, 2017, 10:24 p.m.